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[Seg3D] build problems on 9.10 Ubuntu ?


Chronological Thread 
  • From: <cunha@cacr.caltech.edu>
  • To: seg3d@sci.utah.edu
  • Subject: [Seg3D] build problems on 9.10 Ubuntu ?
  • Date: Thu, 25 Feb 2010 15:05:06 -0700 (MST)

Hi,

I have built seg3D on a 9.10 Ubuntu machine (had to manually set symbolic 
links
to libtiff and libjpeg so ITK could find them) but it is crashing after trying
uploading a .lsm file. Any ideas on what could be the problem ? The .lsm seems
to be OK as we could visualize and convert it using bfconvert from the
Wisconsin group.

Thanks,
- Alex.

cell [271] : ./Seg3D &                                                        
 
                                                          
[1] 25887                                                                     
 
                                                          
cell [272] :                                                                  
 
                                                          
Thread "main" (id: 140330413525024, pid: 25887)                               
 
                                                          
        caught signal SIGSEGV at address 0x7fa12529b010 (segmentation
violation)                                                          
        ...handle_abort_signals...                                            
 
                                                          
niceAbort                                                                     
 
                                                          
Backtrace:                                                                    
 
                                                          
1. ./Seg3D                                                                    
 
                                                          
  in SCIRun::handle_abort_signals(int, siginfo*, void*)                       
 
                                                          
2. /lib/libc.so.6 [0x7fa1339eb040]                                            
 
                                                          
3. ./Seg3D                                                                    
 
                                                          
  in itk::TIFFImageIO::ReadVolume(void*)                                      
 
                                                          
4. ./Seg3D                                                                    
 
                                                          
  in itk::TIFFImageIO::Read(void*)                                            
 
                                                          
5. ./Seg3D                                                                    
 
                                                          
  in itk::ImageFileReader<itk::Image<float, 3u>,
itk::DefaultConvertPixelTraits<float> >::GenerateData()                       
 
         
6. ./Seg3D                                                                    
 
                                                          
  in itk::ProcessObject::UpdateOutputData(itk::DataObject*)                   
 
                                                          
7. ./Seg3D                                                                    
 
                                                          
  in SCIRun::LockingHandle<SCIRun::NrrdVolume>
SCIRun::Painter::load_volume<float>(std::string, int&)                        
 
           
8. ./Seg3D                                                                    
 
                                                          
  in SCIRun::Painter::LoadVolume(std::string const&)                          
 
                                                          
9. ./Seg3D                                                                    
 
                                                          
  in SCIRun::Painter::LoadVolume(SCIRun::LockingHandle<SCIRun::BaseEvent>&)   
 
                                                          
a. ./Seg3D                                                                    
 
                                                          
  in
SCIRun::Skinner::CallbackT<SCIRun::Painter>::operator()(SCIRun::LockingHandle<SCIRun::BaseEvent>&)
                                  
b. ./Seg3D                                                                    
 
                                                          
  in
SCIRun::Skinner::SignalThrower::throw_signal(std::list<SCIRun::Skinner::Callback*,
std::allocator<SCIRun::Skinner::Callback*> >&,
SCIRun::LockingHandle<SCIRun::BaseEvent>&)                                    
 
                                                                              
 
             
c. ./Seg3D                                                                    
 
                                                                          
  in SCIRun::Skinner::SignalThrower::throw_signal(std::map<std::string,
std::list<SCIRun::Skinner::Callback*,
std::allocator<SCIRun::Skinner::Callback*> >, std::less<std::string>,
std::allocator<std::pair<std::string const,
std::list<SCIRun::Skinner::Callback*,
std::allocator<SCIRun::Skinner::Callback*> > > > >&,
SCIRun::LockingHandle<SCIRun::BaseEvent>&)                                    
 
                                                                   
d. ./Seg3D                                                                    
 
                                                                          
  in SCIRun::Skinner::Drawable::throw_signal(std::string const&)              
 
                                                                          
e. ./Seg3D                                                                    
 
                                                                          
  in SCIRun::Painter::ThrowSkinnerSignal(SCIRun::ThrowSkinnerSignalEvent*,
bool)
f. ./Seg3D
  in SCIRun::Seg3DFrame::FileLoadVolume(wxCommandEvent&)
10. ./Seg3D
  in wxEvtHandler::ProcessEventIfMatches(wxEventTableEntryBase const&,
wxEvtHandler*, wxEvent&)
11. ./Seg3D
  in wxEventHashTable::HandleEvent(wxEvent&, wxEvtHandler*)
12. ./Seg3D
  in wxEvtHandler::ProcessEvent(wxEvent&)
13. ./Seg3D [0xcd9145]
14. /usr/lib/libgobject-2.0.so.0(g_closure_invoke+0x16d) [0x7fa13678e27d]
15. /usr/lib/libgobject-2.0.so.0 [0x7fa1367a3e3b]
16. /usr/lib/libgobject-2.0.so.0(g_signal_emit_valist+0x7e2) [0x7fa1367a5432]
17. /usr/lib/libgobject-2.0.so.0(g_signal_emit+0x83) [0x7fa1367a5953]
18. /usr/lib/libgtk-x11-2.0.so.0(gtk_widget_activate+0x6b) [0x7fa137eb59eb]
19. /usr/lib/libgtk-x11-2.0.so.0(gtk_menu_shell_activate_item+0xfd)
[0x7fa137db5e2d]
1a. /usr/lib/libgtk-x11-2.0.so.0 [0x7fa137db7875]
1b. /usr/lib/libgtk-x11-2.0.so.0 [0x7fa137da7df8]
1c. /usr/lib/libgobject-2.0.so.0(g_closure_invoke+0x16d) [0x7fa13678e27d]
1d. /usr/lib/libgobject-2.0.so.0 [0x7fa1367a3b1e]
1e. /usr/lib/libgobject-2.0.so.0(g_signal_emit_valist+0x66d) [0x7fa1367a52bd]
1f. /usr/lib/libgobject-2.0.so.0(g_signal_emit+0x83) [0x7fa1367a5953]
20. /usr/lib/libgtk-x11-2.0.so.0 [0x7fa137eb009e]
21. /usr/lib/libgtk-x11-2.0.so.0(gtk_propagate_event+0xe3) [0x7fa137da0693]
22. /usr/lib/libgtk-x11-2.0.so.0(gtk_main_do_event+0x2e3) [0x7fa137da17b3]
23. /usr/lib/libgdk-x11-2.0.so.0 [0x7fa137a1af3c]
24. /usr/lib/libglib-2.0.so.0(g_main_context_dispatch+0x24a) [0x7fa135ee520a]
25. /usr/lib/libglib-2.0.so.0 [0x7fa135ee88e0]
26. /usr/lib/libglib-2.0.so.0(g_main_loop_run+0x1cd) [0x7fa135ee8dad]
27. /usr/lib/libgtk-x11-2.0.so.0(gtk_main+0xa7) [0x7fa137da1bc7]
28. ./Seg3D
  in wxEventLoop::Run()
29. ./Seg3D
  in wxAppBase::MainLoop()
2a. ./Seg3D
  in wxEntry(int&, char**)
2b. ./Seg3D(main+0x12) [0x735b32]
2c. /lib/libc.so.6(__libc_start_main+0xe6) [0x7fa1339d65a6]
2d. ./Seg3D [0x7359b9]
140330413525024:main( RUNNING, List: )
140330231716176:Seg3D Event Processor(detached,  BLOCKING, Timed wait, List: )
140330226776400:Seg3D Redraw( BLOCKING, Timed wait, List: )
140330225723728:Event Manager( BLOCKING, EventManager, List: )

Abort signalled by pid: 25887
Occured for thread: "main"
Exiting



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